[1] "2025-04-29 21:38:59 MDT" [1] "1406" "140724" "d205" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140724a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 21:39:03 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.733" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.814, ave o2scale2 = 0.733" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:39:03 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:39:03 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:39:23 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:39:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:39:30 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 385.95 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.02 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 243 252 0.1698426 0.1761054 0.1736700 2 38.70627 138.8551 1.220647 3 2 253 262 0.1768009 0.1830637 0.1806294 2 -19.73555 280.6254 1.220859 5 2 543 552 0.3786125 0.3848755 0.3824393 3 -19.66706 281.0689 1.226184 6 4 553 562 0.3855709 0.3918336 0.3893984 3 38.79324 137.8216 1.226345 7 3 563 572 0.3925290 0.3987918 0.3977489 3 18.97648 217.6778 1.226601 9 4 843 852 0.5873324 0.5935956 0.5911610 2 38.90580 135.8257 1.233025 10 2 853 862 0.5942909 0.6005648 0.5981215 2 -19.49534 281.5969 1.234338 11 5 863 872 0.6012622 0.6075439 0.6065006 NA 16.62994 201.1547 1.234422 13 2 1143 1152 0.7961369 0.8024005 0.7999644 3 -19.39023 279.4298 1.237361 14 4 1153 1162 0.8030959 0.8093596 0.8069248 3 39.04235 139.6385 1.237321 15 3 1163 1172 0.8100550 0.8163179 0.8152747 3 19.24141 215.6967 1.237639 jfcv2 co2slp o2slp co2sd o2sd 2 1.355444 1.649780e-04 0.33999242 0.002171176 1.6282850 3 1.355675 -6.279610e-03 -0.40095729 0.015589976 2.0857964 5 1.361515 -3.300882e-05 0.64021240 0.002091116 2.5111983 6 1.361699 4.944703e-03 -0.03862617 0.015442522 2.8786165 7 1.361995 -3.655650e-03 -0.57839354 0.010904872 0.9281451 9 1.368994 6.919086e-04 0.74291012 0.007819136 2.1786677 10 1.370428 -3.819586e-03 0.34567323 0.010914181 2.7935064 11 1.370539 -6.365187e-03 0.24821643 0.004507806 0.6689867 13 1.373698 -1.852064e-03 0.14018838 0.006206899 1.8184056 14 1.373656 2.816771e-03 0.35341443 0.014675886 2.6268369 15 1.374008 -2.116116e-04 1.17091871 0.005739503 1.5170143 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.885 co2l1 = 0.473 co2l0 = 0.084" [1] "co2l0 = -144.53 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "163 out of 865 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "702 out of 1278 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "702 out of 1278 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"